Galatasaray’s victory means the Lion’s will serve their one-year ban from European football – imposed by UEFA for not complying with Financial Fair Play rules – next season.
The Istanbul Giants will be eligible to play in Europe once again in the 2017-18 campaign.
Galatasaray are unbeaten against Fenerbahce in their five cup finals.
Fenerbahce winger Luis Nani was sent off following the final whistle after sarcastically applauding the referee.
Galatasaray 1 – 0 Fenerbahce
Referee: Mete Kalkavan
Galatasaray: Muslera, Semih, Denayer, Hakan, Carole, Selçuk, Emre, Sinan, Sneijder, Yasin, Podolski.
Manager: J. Olde Riekerink
Fenerbahce: Fabiano, Şener, Ba, Kjaer, Hasan Ali, Mehmet Topal, Josef, Alper, Volkan, Nani, van Persie
Manager: Vitor Pereira